5K77

Dbr1 in complex with 7-mer branched RNA

Functional Information from GO Data

Chain	GOid	namespace	contents
A	0000375	biological_process	RNA splicing, via transesterification reactions
A	0000398	biological_process	mRNA splicing, via spliceosome
A	0003723	molecular_function	RNA binding
A	0005506	molecular_function	iron ion binding
A	0005634	cellular_component	nucleus
A	0006397	biological_process	mRNA processing
A	0008270	molecular_function	zinc ion binding
A	0008419	molecular_function	RNA lariat debranching enzyme activity
A	0016787	molecular_function	hydrolase activity
A	0030145	molecular_function	manganese ion binding
A	0046872	molecular_function	metal ion binding
A	0048471	cellular_component	perinuclear region of cytoplasm
B	0000375	biological_process	RNA splicing, via transesterification reactions
B	0000398	biological_process	mRNA splicing, via spliceosome
B	0003723	molecular_function	RNA binding
B	0005506	molecular_function	iron ion binding
B	0005634	cellular_component	nucleus
B	0006397	biological_process	mRNA processing
B	0008270	molecular_function	zinc ion binding
B	0008419	molecular_function	RNA lariat debranching enzyme activity
B	0016787	molecular_function	hydrolase activity
B	0030145	molecular_function	manganese ion binding
B	0046872	molecular_function	metal ion binding
B	0048471	cellular_component	perinuclear region of cytoplasm
C	0000375	biological_process	RNA splicing, via transesterification reactions
C	0000398	biological_process	mRNA splicing, via spliceosome
C	0003723	molecular_function	RNA binding
C	0005506	molecular_function	iron ion binding
C	0005634	cellular_component	nucleus
C	0006397	biological_process	mRNA processing
C	0008270	molecular_function	zinc ion binding
C	0008419	molecular_function	RNA lariat debranching enzyme activity
C	0016787	molecular_function	hydrolase activity
C	0030145	molecular_function	manganese ion binding
C	0046872	molecular_function	metal ion binding
C	0048471	cellular_component	perinuclear region of cytoplasm
D	0000375	biological_process	RNA splicing, via transesterification reactions
D	0000398	biological_process	mRNA splicing, via spliceosome
D	0003723	molecular_function	RNA binding
D	0005506	molecular_function	iron ion binding
D	0005634	cellular_component	nucleus
D	0006397	biological_process	mRNA processing
D	0008270	molecular_function	zinc ion binding
D	0008419	molecular_function	RNA lariat debranching enzyme activity
D	0016787	molecular_function	hydrolase activity
D	0030145	molecular_function	manganese ion binding
D	0046872	molecular_function	metal ion binding
D	0048471	cellular_component	perinuclear region of cytoplasm
E	0000375	biological_process	RNA splicing, via transesterification reactions
E	0000398	biological_process	mRNA splicing, via spliceosome
E	0003723	molecular_function	RNA binding
E	0005506	molecular_function	iron ion binding
E	0005634	cellular_component	nucleus
E	0006397	biological_process	mRNA processing
E	0008270	molecular_function	zinc ion binding
E	0008419	molecular_function	RNA lariat debranching enzyme activity
E	0016787	molecular_function	hydrolase activity
E	0030145	molecular_function	manganese ion binding
E	0046872	molecular_function	metal ion binding
E	0048471	cellular_component	perinuclear region of cytoplasm

Functional Information from PDB Data

site_id	AC1
Number of Residues	7
Details	binding site for residue ZN A 401

Chain	Residue
A	CYS14
A	HIS16
A	ASP45
A	HIS232
A	FE2402
A	OH408
v	G510

---

site_id	AC2
Number of Residues	7
Details	binding site for residue FE2 A 402

Chain	Residue
A	HIS180
A	HIS230
A	ZN401
A	OH408
v	G510
A	ASP45
A	ASN90

---

site_id	AC3
Number of Residues	4
Details	binding site for residue SO4 A 403

Chain	Residue
A	ARG50
A	ASN95
A	HIS99
A	PRO146

---

site_id	AC4
Number of Residues	5
Details	binding site for residue SO4 A 404

Chain	Residue
A	LYS18
A	TYR64
A	LYS249
A	TYR252
V	A501

---

site_id	AC5
Number of Residues	3
Details	binding site for residue SO4 A 405

Chain	Residue
A	LYS320
A	TYR321
B	TYR74

---

site_id	AC6
Number of Residues	4
Details	binding site for residue SO4 A 406

Chain	Residue
A	TYR74
A	HOH547
D	LYS320
D	TYR321

---

site_id	AC7
Number of Residues	2
Details	binding site for residue SO4 A 407

Chain	Residue
A	LYS289
A	THR338

---

site_id	AC8
Number of Residues	8
Details	binding site for residue OH A 408

Chain	Residue
A	CYS14
A	ASP45
A	HIS180
A	HIS230
A	HIS232
A	ZN401
A	FE2402
v	G510

---

site_id	AC9
Number of Residues	7
Details	binding site for residue FE2 B 401

Chain	Residue
B	ASP45
B	ASN90
B	HIS180
B	HIS230
B	ZN402
B	OH407
w	G510

---

site_id	AD1
Number of Residues	7
Details	binding site for residue ZN B 402

Chain	Residue
B	CYS14
B	HIS16
B	ASP45
B	HIS232
B	FE2401
B	OH407
w	G510

---

site_id	AD2
Number of Residues	6
Details	binding site for residue SO4 B 403

Chain	Residue
B	ARG50
B	ASN95
B	HIS99
B	PRO146
B	HOH513
B	HOH559

---

site_id	AD3
Number of Residues	3
Details	binding site for residue SO4 B 404

Chain	Residue
B	LYS18
B	LYS249
W	A501

---

site_id	AD4
Number of Residues	7
Details	binding site for residue SO4 B 405

Chain	Residue
B	GLN184
B	GLY185
B	LYS215
B	HOH510
B	HOH557
C	THR307
C	LYS308

---

site_id	AD5
Number of Residues	4
Details	binding site for residue SO4 B 406

Chain	Residue
B	THR307
B	LYS308
C	LYS215
C	HOH546

---

site_id	AD6
Number of Residues	8
Details	binding site for residue OH B 407

Chain	Residue
B	CYS14
B	ASP45
B	HIS180
B	HIS230
B	HIS232
B	FE2401
B	ZN402
w	G510

---

site_id	AD7
Number of Residues	7
Details	binding site for residue ZN C 401

Chain	Residue
C	CYS14
C	HIS16
C	ASP45
C	HIS232
C	FE2402
C	OH410
x	G510

---

site_id	AD8
Number of Residues	7
Details	binding site for residue FE2 C 402

Chain	Residue
C	ASP45
C	ASN90
C	HIS180
C	HIS230
C	ZN401
C	OH410
x	G510

---

site_id	AD9
Number of Residues	7
Details	binding site for residue SO4 C 403

Chain	Residue
C	PRO146
C	HOH505
C	HOH516
C	HOH574
C	ARG50
C	ASN95
C	HIS99

---

site_id	AE1
Number of Residues	7
Details	binding site for residue SO4 C 404

Chain	Residue
C	LYS320
C	TYR321
C	HOH503
C	HOH515
D	TYR51
D	TYR74
D	THR332

---

site_id	AE2
Number of Residues	5
Details	binding site for residue SO4 C 405

Chain	Residue
C	GLN199
C	CYS233
C	GLU234
C	ASN254
C	HOH598

---

site_id	AE3
Number of Residues	3
Details	binding site for residue SO4 C 406

Chain	Residue
C	LYS18
C	LYS249
X	A501

---

site_id	AE4
Number of Residues	4
Details	binding site for residue SO4 C 407

Chain	Residue
C	LYS189
C	GLU238
C	GLU239
C	GLY240

---

site_id	AE5
Number of Residues	2
Details	binding site for residue SO4 C 408

Chain	Residue
C	ARG20
C	ARG24

---

site_id	AE6
Number of Residues	4
Details	binding site for residue SO4 C 409

Chain	Residue
C	TYR74
C	HOH577
E	LYS320
E	TYR321

---

site_id	AE7
Number of Residues	8
Details	binding site for residue OH C 410

Chain	Residue
C	CYS14
C	ASP45
C	HIS180
C	HIS230
C	HIS232
C	ZN401
C	FE2402
x	G510

---

site_id	AE8
Number of Residues	7
Details	binding site for residue FE2 D 401

Chain	Residue
D	ASP45
D	ASN90
D	HIS180
D	HIS230
D	ZN402
D	OH408
y	G510

---

site_id	AE9
Number of Residues	7
Details	binding site for residue ZN D 402

Chain	Residue
D	CYS14
D	HIS16
D	ASP45
D	HIS232
D	FE2401
D	OH408
y	G510

---

site_id	AF1
Number of Residues	7
Details	binding site for residue SO4 D 403

Chain	Residue
D	ARG50
D	ASN95
D	HIS99
D	PRO146
D	HOH517
D	HOH533
D	HOH550

---

site_id	AF2
Number of Residues	2
Details	binding site for residue SO4 D 404

Chain	Residue
D	SER172
D	GLN173

---

site_id	AF3
Number of Residues	5
Details	binding site for residue SO4 D 405

Chain	Residue
D	GLN163
D	SER298
D	ILE299
D	SER300
D	HOH590

---

site_id	AF4
Number of Residues	4
Details	binding site for residue SO4 D 406

Chain	Residue
D	GLY68
D	HIS71
D	LEU72
D	HOH599

---

site_id	AF5
Number of Residues	5
Details	binding site for residue SO4 D 407

Chain	Residue
D	LYS18
D	TYR64
D	LYS249
D	TYR252
Y	A501

---

site_id	AF6
Number of Residues	8
Details	binding site for residue OH D 408

Chain	Residue
D	CYS14
D	ASP45
D	HIS180
D	HIS230
D	HIS232
D	FE2401
D	ZN402
y	G510

---

site_id	AF7
Number of Residues	7
Details	binding site for residue FE2 E 401

Chain	Residue
E	ASP45
E	ASN90
E	HIS180
E	HIS230
E	ZN402
E	OH407
z	G510

---

site_id	AF8
Number of Residues	7
Details	binding site for residue ZN E 402

Chain	Residue
E	CYS14
E	HIS16
E	ASP45
E	HIS232
E	FE2401
E	OH407
z	G510

---

site_id	AF9
Number of Residues	7
Details	binding site for residue SO4 E 403

Chain	Residue
E	ARG50
E	ASN95
E	HIS99
E	PRO146
E	HOH509
E	HOH529
E	HOH545

---

site_id	AG1
Number of Residues	5
Details	binding site for residue SO4 E 404

Chain	Residue
E	LYS18
E	TYR64
E	LYS249
E	TYR252
Z	A501

---

site_id	AG2
Number of Residues	4
Details	binding site for residue SO4 E 405

Chain	Residue
E	GLN163
E	SER298
E	ILE299
E	SER300

---

site_id	AG3
Number of Residues	5
Details	binding site for residue SO4 E 406

Chain	Residue
B	LYS320
B	TYR321
E	TYR51
E	TYR74
E	HOH570

---

site_id	AG4
Number of Residues	8
Details	binding site for residue OH E 407

Chain	Residue
E	CYS14
E	ASP45
E	HIS180
E	HIS230
E	HIS232
E	FE2401
E	ZN402
z	G510

---

site_id	AG5
Number of Residues	25
Details	binding site for Di-nucleotide G G 510 and A V 501

Chain	Residue
A	HIS16
A	ASP45
A	GLN47
A	VAL60
A	PRO61
A	TYR64
A	ASN90
A	GLY201
A	PHE202
A	ASP205
A	LEU209
A	HIS230
A	MET231
A	HIS232
A	LYS249
A	ZN401
A	FE2402
A	SO4404
A	OH408
A	HOH529
A	HOH534
v	U511
v	HOH601
V	A500
V	C502

---

site_id	AG6
Number of Residues	22
Details	binding site for Di-nucleotide G H 510 and A W 501

Chain	Residue
B	HIS16
B	ASP45
B	GLN47
B	PRO61
B	LYS63
B	TYR64
B	ASN90
B	GLY201
B	ASP205
B	LEU209
B	HIS230
B	MET231
B	HIS232
B	LYS249
B	FE2401
B	ZN402
B	SO4404
B	OH407
B	HOH549
w	U511
W	A500
W	C502

---

site_id	AG7
Number of Residues	25
Details	binding site for Di-nucleotide G I 510 and A X 501

Chain	Residue
C	HIS16
C	ASP45
C	GLN47
C	VAL60
C	PRO61
C	TYR64
C	ASN90
C	GLY201
C	PHE202
C	ASP205
C	LEU209
C	HIS230
C	MET231
C	HIS232
C	LYS249
C	ZN401
C	FE2402
C	SO4406
C	OH410
C	HOH532
C	HOH592
x	U511
x	HOH601
X	A500
X	C502

---

site_id	AG8
Number of Residues	23
Details	binding site for Di-nucleotide G J 510 and A Y 501

Chain	Residue
D	HIS16
D	ASP45
D	GLN47
D	VAL60
D	PRO61
D	TYR64
D	ASN90
D	GLY201
D	PHE202
D	ASP205
D	LEU209
D	HIS230
D	MET231
D	HIS232
D	LYS249
D	FE2401
D	ZN402
D	SO4407
D	OH408
D	HOH523
y	U511
Y	A500
Y	C502

---

site_id	AG9
Number of Residues	23
Details	binding site for Di-nucleotide G K 510 and A Z 501

Chain	Residue
E	HIS16
E	ASP45
E	GLN47
E	VAL60
E	PRO61
E	TYR64
E	ASN90
E	GLY201
E	PHE202
E	ASP205
E	LEU209
E	HIS230
E	MET231
E	HIS232
E	LYS249
E	FE2401
E	ZN402
E	SO4404
E	OH407
z	U511
Z	A500
Z	C502
Z	HOH602

---

Functional Information from SwissProt/UniProt

site_id	SWS_FT_FI1
Number of Residues	140
Details	Region: {"description":"Lariat recognition loop","evidences":[{"source":"PubMed","id":"27930312","evidenceCode":"ECO:0000269"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI2
Number of Residues	10
Details	Binding site: {"evidences":[{"source":"PubMed","id":"27930312","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"28504306","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"5K73","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"5K77","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"5K78","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"5UKI","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI3
Number of Residues	10
Details	Binding site: {"evidences":[{"source":"PubMed","id":"25123664","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"27930312","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"28504306","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"4PEF","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"4PEG","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"4PEH","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"4PEI","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"5K73","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"5K77","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"5K78","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"5UKI","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI4
Number of Residues	15
Details	Binding site: {"evidences":[{"source":"PubMed","id":"25123664","evidenceCode":"ECO:0000269"},{"source":"Reference","evidenceCode":"ECO:0000269","citation":{"citationType":"submission","publicationDate":"AUG-2022","submissionDatabase":"PDB data bank","title":"Dbr1 in complex with 5-mer cleavage product.","authors":["Clark N.E.","Taylor A.B."]}},{"source":"PDB","id":"4PEH","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"8DZK","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI5
Number of Residues	5
Details	Binding site: {"evidences":[{"source":"PubMed","id":"25123664","evidenceCode":"ECO:0000269"},{"source":"Reference","evidenceCode":"ECO:0000269","citation":{"citationType":"submission","publicationDate":"AUG-2022","submissionDatabase":"PDB data bank","title":"Dbr1 in complex with 5-mer cleavage product.","authors":["Clark N.E.","Taylor A.B."]}},{"source":"PDB","id":"4PEG","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"4PEI","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"8DZK","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI6
Number of Residues	5
Details	Binding site: {"evidences":[{"source":"PubMed","id":"25123664","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"4PEG","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"4PEI","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI7
Number of Residues	10
Details	Binding site: {"evidences":[{"source":"PubMed","id":"25123664","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"27930312","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"4PEG","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"4PEI","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"5K77","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"5K78","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI8
Number of Residues	5
Details	Binding site: {"evidences":[{"source":"PubMed","id":"25123664","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"27930312","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"4PEG","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"4PEH","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"4PEI","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"5K77","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"5K78","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI9
Number of Residues	10
Details	Binding site: {"evidences":[{"source":"PubMed","id":"27930312","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"4PEG","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"4PEI","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

---